public void ValidateCopyTo()
{
// Get input and expected values from xml
string expectedSequence = utilityObj.xmlUtil.GetTextValue(
Constants.DnaDerivedSequenceNode, Constants.ExpectedSequence);
string alphabetName = utilityObj.xmlUtil.GetTextValue(
Constants.DnaDerivedSequenceNode, Constants.AlphabetNameNode);
IAlphabet alphabet = Utility.GetAlphabet(alphabetName);
// Create derived Sequence
DerivedSequence seqObj = CreateDerivedSequence(
alphabet, expectedSequence);
byte[] array = new byte[expectedSequence.Length];
seqObj.CopyTo(array, 0, expectedSequence.Length);
StringBuilder builder = new StringBuilder();
for (int i = 0; i < expectedSequence.Length; i++)
{
builder.Append((char)array[i]);
}
string actualValue = builder.ToString();
Assert.AreEqual(expectedSequence, actualValue);
//check with a part of the expected seq only
seqObj.CopyTo(array, 0, 5);
builder = new StringBuilder();
for (int i = 0; i < 5; i++)
{
builder.Append((char)array[i]);
}
actualValue = builder.ToString();
Assert.AreEqual(expectedSequence.Substring(0, 5), actualValue);
}
public void TestDeriveSequenceCopyTo()
{
ISequence seq = new Sequence(Alphabets.DNA, "ATCG");
DerivedSequence derSeq = new DerivedSequence(seq, false, true);
byte[] array = new byte[2];
derSeq.CopyTo(array, 1, 2);
string expectedValue = "AG";
StringBuilder b = new StringBuilder();
b.Append((char)array[0]);
b.Append((char)array[1]);
string actualValue = b.ToString();
Assert.AreEqual(expectedValue, actualValue);
}
public void TestDeriveSequenceCopyTo()
{
ISequence seq = new Sequence(Alphabets.DNA, "ATCG");
DerivedSequence derSeq = new DerivedSequence(seq, false, true);
byte[] array = new byte[2];
derSeq.CopyTo(array, 1, 2);
string expectedValue = "AG";
StringBuilder b = new StringBuilder();
b.Append((char)array[0]);
b.Append((char)array[1]);
string actualValue = b.ToString();
Assert.AreEqual(expectedValue, actualValue);
}
public void ValidateDerivedNullCopyTo()
{
// Pass protein sequences
ISequence seqObj = new Sequence(Alphabets.Protein, "EEE");
DerivedSequence deriSeq = new DerivedSequence(seqObj);
// Pass null value and get the exception required
try
{
deriSeq.CopyTo(null, 0);
Assert.IsTrue(false);
}
catch (ArgumentNullException)
{
ApplicationLog.WriteLine(
"DerivedSequenceP2TestCases : Successfully validated the null exception for CopyTo() method");
Console.WriteLine(
"DerivedSequenceP2TestCases : Successfully validated the null exception for CopyTo() method");
}
}
/// <summary>
/// Creates a dna derived sequence after adding and removing few items from original sequence.
/// Create a empty array and copy all sequence items derived sequence
/// and validates it against expected sequence items.
/// </summary>
/// <param name="nodeName"></param>
private void ValidateDerivedSequenceCopyTo(string nodeName)
{
// Get input and expected values from xml
string expectedSequence = _utilityObj._xmlUtil.GetTextValue(
nodeName, Constants.ExpectedSequence);
string alphabetName = _utilityObj._xmlUtil.GetTextValue(
nodeName, Constants.AlphabetNameNode);
string removeRange = _utilityObj._xmlUtil.GetTextValue(
nodeName, Constants.RemoveRange);
string addSequence = _utilityObj._xmlUtil.GetTextValue(
nodeName, Constants.AddSequence);
string derivedSequence = _utilityObj._xmlUtil.GetTextValue(
nodeName, Constants.DerivedSequence);
IAlphabet alphabet = Utility.GetAlphabet(alphabetName);
// Create derived Sequence
DerivedSequence derSequence = CreateDerivedSequence(
alphabet, expectedSequence, addSequence, removeRange);
ISequenceItem[] sequenceItems = new ISequenceItem[derSequence.Count];
derSequence.CopyTo(sequenceItems, 0);
// Validate copy of derived Sequence.
int index = 0;
foreach (ISequenceItem item in sequenceItems)
{
Assert.AreEqual(derivedSequence[index], item.Symbol);
index++;
}
Console.WriteLine(
"DerivedSequenceBvtTestCases:Validation of Clone() of derived sequence completed successfully");
ApplicationLog.WriteLine(
"DerivedSequenceBvtTestCases:Validation of Clone() of derived sequence completed successfully");
}
public void ValidateDerivedInvalidIndexCopyTo()
{
// Pass protein sequences
ISequence seqObj = new Sequence(Alphabets.Protein, "EEE");
DerivedSequence deriSeqObj = new DerivedSequence(seqObj);
ISequence tempSeqObj = new Sequence(Alphabets.Protein, "KIE");
ISequenceItem[] seqItemObj = tempSeqObj.ToArray();
// Pass invalid index value and get the exception required
try
{
deriSeqObj.CopyTo(seqItemObj, -1);
Assert.IsTrue(false);
}
catch (IndexOutOfRangeException)
{
ApplicationLog.WriteLine(
"DerivedSequenceP2TestCases : Successfully validated the index out of range exception for CopyTo() method");
Console.WriteLine(
"DerivedSequenceP2TestCases : Successfully validated the index out of range exception for CopyTo() method");
}
}
public void InvalidateCopyTo()
{
// Get input and expected values from xml
string expectedSequence = utilityObj.xmlUtil.GetTextValue(
Constants.DnaDerivedSequenceNode, Constants.ExpectedSequence);
string alphabetName = utilityObj.xmlUtil.GetTextValue(
Constants.DnaDerivedSequenceNode, Constants.AlphabetNameNode);
IAlphabet alphabet = Utility.GetAlphabet(alphabetName);
// Create derived Sequence
DerivedSequence seqObj = CreateDerivedSequence(
alphabet, expectedSequence);
//check with null array
byte[] array = null;
try
{
seqObj.CopyTo(array, 10, 20);
Assert.Fail();
}
catch (ArgumentNullException anex)
{
ApplicationLog.WriteLine("Successfully caught ArgumentNullException : " + anex.Message);
}
//check with more than available length
array = new byte[expectedSequence.Length];
try
{
seqObj.CopyTo(array, 0, expectedSequence.Length + 100);
Assert.Fail();
}
catch (ArgumentException aex)
{
ApplicationLog.WriteLine("Successfully caught ArgumentException : " + aex.Message);
}
//check with negative start
array = new byte[expectedSequence.Length];
try
{
seqObj.CopyTo(array, -5, expectedSequence.Length);
Assert.Fail();
}
catch (ArgumentException aex)
{
ApplicationLog.WriteLine("Successfully caught ArgumentException : " + aex.Message);
}
//check with negative count
array = new byte[expectedSequence.Length];
try
{
seqObj.CopyTo(array, 0, -5);
Assert.Fail();
}
catch (ArgumentException aex)
{
ApplicationLog.WriteLine("Successfully caught ArgumentException : " + aex.Message);
}
}
